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Bibliography

Braun & Gõ, 1985
Braun, W. & Gõ, N. (1985).
J. Mol. Biol. 186, 611-626.

Brünger, 1992
Brünger, A. T. (1992).
X-PLOR Manual Version 3.1.
Yale University New Haven, Connecticut.

Felsenstein, 1985
Felsenstein, J. (1985).
Evolution, 39, 783-791.

Fiser et al., 2000
Fiser, A., Do, R. K. G., & Šali, A. (2000).
Protein Sci. 9, 1-21.
(Also available online).

Gotoh, 1982
Gotoh, O. (1982).
J. Mol. Biol. 162, 705-708.

Hubbard & Blundell, 1987
Hubbard, T. J. P. & Blundell, T. L. (1987).
Protein Eng. 1, 159-171.

IUPAC-IUB, 1970
IUPAC-IUB (1970).
Biochem. 9, 3471-3479.

Kabsch & Sander, 1983
Kabsch, W. & Sander, C. (1983).
Biopolymers, 22, 2577-2637.

Karlin & Altschul, 1990
Karlin, S. & Altschul, S. F. (1990).
Proc. Natl. Acad. Sci. USA, 87, 2264-2268.

Kendrew et al., 1970
Kendrew, J. C., Klyne, W., Lifson, S., Miyazawa, T., Némethy, G., Phillips, D. C., Ramachandran, G. N., & Scheraga, H. (1970).
J. Mol. Biol. 52, 1-17.

MacKerell et al., 1998
MacKerell, Jr., A. D., Bashford, D., Bellott, M., Dunbrack Jr., R. L., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph-McCarthy, D., Kuchnir, L., Kuczera, K., Lau, F. T. K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D. T., Prodhom, B., Reiher, III, W. E., Roux, B., Schlenkrich, M., Smith, J. C., Stote, R., Straub, J., Watanabe, M., Wiorkiewicz-Kuczera, J., Yin, D., & Karplus, M. (1998).
J. Phys. Chem. B, 102, 3586-3616.

Martí-Renom et al., 2004
Martí-Renom, M. A., Madhusudhan, M. S., & Šali, A. (2004).
Protein Sci. 13, 1071-1087.
(Also available online).

Melo & Feytmans, 1997
Melo, F. & Feytmans, E. (1997).
J. Mol. Biol. 267, 207-222.

Melo et al., 2002
Melo, F., Sánchez, R., & Šali, A. (2002).
Protein Sci. 11, 430-448.
(Also available online).

Metropolis et al., 1953
Metropolis, N., Rosenbluth, A. W., Rosenbluth, M. N., Teller, A. H., & Teller, E. (1953).
J. Chem. Phys. 21, 1087-1092.

Needleman & Wunsch, 1970
Needleman, S. B. & Wunsch, C. D. (1970).
J. Mol. Biol. 48, 443-453.

Nicholls et al., 1991
Nicholls, A., Sharp, K. A., & Honig, B. (1991).
Proteins, 11, 281-296.

Press et al., 1992
Press, W. H., Teukolsky, S. A., Vetterling, W. T., & Flannery, B. P. (1992).
Numerical Recipes, 2nd edition.
Cambridge: Cambridge University Press.

Richards & Kundrot, 1988
Richards, F. M. & Kundrot, C. E. (1988).
Proteins, 3, 71-84.

Richmond & Richards, 1978
Richmond, T. J. & Richards, F. M. (1978).
J. Mol. Biol. 119, 537-555.

Šali & Blundell, 1990
Šali, A. & Blundell, T. L. (1990).
J. Mol. Biol. 212, 403-428.
(Also available online).

Šali & Blundell, 1993
Šali, A. & Blundell, T. L. (1993).
J. Mol. Biol. 234, 779-815.
(Also available online).

Šali & Overington, 1994
Šali, A. & Overington, J. (1994).
Protein Sci. 3, 1582-1596.
(Also available online).

Sankoff & Kruskal, 1983
Sankoff, D. & Kruskal, J. B. (1983).
Time warps, string edits, and macromolecules: The theory and practice of sequence comparison.
Reading, MA: Addison-Wesley Publishing Company.

Sellers, 1974
Sellers, P. H. (1974).
J. Comb. Theor. A16, 253-258.

Shanno & Phua, 1980
Shanno, D. F. & Phua, K. H. (1980).
ACM Trans. Math. Soft. 6, 618-622.

Shanno & Phua, 1982
Shanno, D. F. & Phua, K. H. (1982).
In: Collected algorithms from ACM. Trans. Math. Software volume 2(1).

Smith & Waterman, 1981
Smith, T. F. & Waterman, M. S. (1981).
J. Mol. Biol. 147, 195-197.

Subbiah et al., 1993
Subbiah, S., Laurents, D. V., & Levitt, M. (1993).
Curr. Biol. 3, 141-148.

Sutcliffe et al., 1987
Sutcliffe, M. J., Haneef, I., Carney, D., & Blundell, T. L. (1987).
Protein Eng. 1, 377-384.

Topf et al., 2005
Topf, M., Baker, M. L., John, B., Chiu, W., & Šali, A. (2005).
J. Struct. Biol. 149, 191-203.
(Also available online).

van Schaik et al., 1993
van Schaik, R. C., Berendsen, H. J., & Torda, A. E. (1993).
J. Mol. Biol. 234, 751-762.

Verlet, 1967
Verlet, J. (1967).
Phys. Rev. 159, 98-103.



Ben Webb 2005-06-20